ELECTRON MICROSCOPY

Sample

B-cell lymphoma 6 protein (BCL6) filament

Specimen Preperation
Sample Aggregation State FILAMENT
Vitrification Instrument LEICA EM GP
Cryogen Name ETHANE
Sample Vitrification Details 4 ul sample applied twice, blotted 1.3s each time
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 112048
Reported Resolution (Å) 3.7
Resolution Method FSC 0.143 CUT-OFF
Other Details as implemented in Relion
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details Real_space_refine: global minimization, rigid body and adp refinement with target restraints.
Data Acquisition
Detector Type GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å2) 63.4
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) -1000
Maximum Defocus (nm) -2500
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS 2.7
Imaging Mode BRIGHT FIELD
Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification 105000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details Data collection in counting mode, using multi shot scheme (4 holes per stage position, 2 shots per hole)
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION crYOLO ?
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION CTFFIND ?
CTF CORRECTION RELION ?
MODEL FITTING Coot 0.89
MODEL REFINEMENT PHENIX 1.17
INITIAL EULER ASSIGNMENT RELION 3.0
FINAL EULER ASSIGNMENT RELION 3.0
CLASSIFICATION RELION 3.0
RECONSTRUCTION RELION 3.0
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION Standard CTF correction in relion, based on parameters estimated by CTFFIND4